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A530064D06Rik RIKEN cDNA A530064D06 gene [ Mus musculus (house mouse) ]

Gene ID: 328830, updated on 11-Apr-2024

Summary

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Official Symbol
A530064D06Rikprovided by MGI
Official Full Name
RIKEN cDNA A530064D06 geneprovided by MGI
Primary source
MGI:MGI:2443476
See related
Ensembl:ENSMUSG00000043939 AllianceGenome:MGI:2443476
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Trem4; pdctrem
Summary
Predicted to enable signaling receptor activity. Predicted to be active in cell surface. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in liver E18 (RPKM 1.3), spleen adult (RPKM 1.0) and 15 other tissues See more
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Genomic context

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Location:
17 C; 17 23.99 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (48459064..48474425, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (48151896..48167257, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A730006G06 gene Neighboring gene RIKEN cDNA 1700067P10 gene Neighboring gene RIKEN cDNA 9830107B12 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:48237942-48238143 Neighboring gene STARR-positive B cell enhancer ABC_E9956 Neighboring gene STARR-seq mESC enhancer starr_42745 Neighboring gene STARR-seq mESC enhancer starr_42746 Neighboring gene STARR-seq mESC enhancer starr_42747 Neighboring gene predicted gene, 52308 Neighboring gene triggering receptor expressed on myeloid cells 1 Neighboring gene Ewing sarcoma breakpoint region 1 pseudogene Neighboring gene predicted gene, 52307 Neighboring gene triggering receptor expressed on myeloid cells 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. PDC-TREM, a plasmacytoid dendritic cell-specific receptor, is responsible for augmented production of type I interferon. Watarai H, et al. Proc Natl Acad Sci U S A, 2008 Feb 26. PMID 18287072, Free PMC Article
  2. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
  3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
  5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. PDC-TREM is responsible for IFN-alpha production in plasmacytoid dendritic cells.
    Title: PDC-TREM, a plasmacytoid dendritic cell-specific receptor, is responsible for augmented production of type I interferon.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables signaling receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cell surface IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
triggering receptor expressed in myeloid cells 4
Names
plasmacytoid dendritic cell-specific receptor
triggering receptor expressed on myeloid cells 4

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001113556.1 → NP_001107028.1  triggering receptor expressed in myeloid cells 4 isoform b precursor

    See identical proteins and their annotated locations for NP_001107028.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal coding exon which results in a frameshift, compared to variant 1. The resulting isoform (b) is shorter and has a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK080114, AK171433, BY194994
    Consensus CDS
    CCDS50138.1
    UniProtKB/TrEMBL
    Q8C239, Q8C254
    Related
    ENSMUSP00000027764.9, ENSMUST00000027764.10
    Conserved Domains (2) summary
    cd05716
    Location:28 → 105
    Ig_pIgR; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR)
    smart00410
    Location:26 → 121
    IG_like; Immunoglobulin like

  2. NM_178796.6 → NP_848911.2  triggering receptor expressed in myeloid cells 4 isoform a precursor

    See identical proteins and their annotated locations for NP_848911.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a).
    Source sequence(s)
    AK080114, AK171433, BY194994
    Consensus CDS
    CCDS28859.1
    UniProtKB/TrEMBL
    Q8BNV8
    Related
    ENSMUSP00000055935.7, ENSMUST00000053612.14
    Conserved Domains (2) summary
    cd05716
    Location:28 → 105
    Ig_pIgR; Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR)
    smart00410
    Location:26 → 111
    IG_like; Immunoglobulin like

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    48459064..48474425 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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